As long as they (NGOs and even media) admit that they are not neutral and are actors in the conflict, with a political agenda, which therefore allows certain actions to be taken against them, I have no problem.
Why do you want to take actions against them?
NGO are the best allies of military power nowadays. They are looking for someone to protect them from weapons carriers or fighters who do not respect their neutral status.

The only thing being their legal status in war zones are asking you to be more subtile than brutal. (I even saw mormons funding muslim NGO in Afghanistan.) What is important is the psyop you conduct with. Not against NGO work but to integrate NGO and to win hearts and minds.

By definition, for NGO, occupying powers are the bad guys. All you have to do is making sure that you control their funds sources and then NGO have an open position against you but do the job for you. But coordination of aid and harmonised approach is may be the most difficult to achieve.